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Expression of distinct RNAs from 3′ untranslated regions

The 3′ untranslated regions (3′UTRs) of eukaryotic genes regulate mRNA stability, localization and translation. Here, we present evidence that large numbers of 3′UTRs in human, mouse and fly are also expressed separately from the associated protein-coding sequences to which they are normally linked,...

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Autores principales: Mercer, Tim R., Wilhelm, Dagmar, Dinger, Marcel E., Soldà, Giulia, Korbie, Darren J., Glazov, Evgeny A., Truong, Vy, Schwenke, Maren, Simons, Cas, Matthaei, Klaus I., Saint, Robert, Koopman, Peter, Mattick, John S.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2011
Materias:
RNA
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3064787/
https://www.ncbi.nlm.nih.gov/pubmed/21075793
http://dx.doi.org/10.1093/nar/gkq1158
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author Mercer, Tim R.
Wilhelm, Dagmar
Dinger, Marcel E.
Soldà, Giulia
Korbie, Darren J.
Glazov, Evgeny A.
Truong, Vy
Schwenke, Maren
Simons, Cas
Matthaei, Klaus I.
Saint, Robert
Koopman, Peter
Mattick, John S.
author_facet Mercer, Tim R.
Wilhelm, Dagmar
Dinger, Marcel E.
Soldà, Giulia
Korbie, Darren J.
Glazov, Evgeny A.
Truong, Vy
Schwenke, Maren
Simons, Cas
Matthaei, Klaus I.
Saint, Robert
Koopman, Peter
Mattick, John S.
author_sort Mercer, Tim R.
collection PubMed
description The 3′ untranslated regions (3′UTRs) of eukaryotic genes regulate mRNA stability, localization and translation. Here, we present evidence that large numbers of 3′UTRs in human, mouse and fly are also expressed separately from the associated protein-coding sequences to which they are normally linked, likely by post-transcriptional cleavage. Analysis of CAGE (capped analysis of gene expression), SAGE (serial analysis of gene expression) and cDNA libraries, as well as microarray expression profiles, demonstrate that the independent expression of 3′UTRs is a regulated and conserved genome-wide phenomenon. We characterize the expression of several 3′UTR-derived RNAs (uaRNAs) in detail in mouse embryos, showing by in situ hybridization that these transcripts are expressed in a cell- and subcellular-specific manner. Our results suggest that 3′UTR sequences can function not only in cis to regulate protein expression, but also intrinsically and independently in trans, likely as noncoding RNAs, a conclusion supported by a number of previous genetic studies. Our findings suggest novel functions for 3′UTRs, as well as caution in the use of 3′UTR sequence probes to analyze gene expression.
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spelling pubmed-30647872011-03-28 Expression of distinct RNAs from 3′ untranslated regions Mercer, Tim R. Wilhelm, Dagmar Dinger, Marcel E. Soldà, Giulia Korbie, Darren J. Glazov, Evgeny A. Truong, Vy Schwenke, Maren Simons, Cas Matthaei, Klaus I. Saint, Robert Koopman, Peter Mattick, John S. Nucleic Acids Res RNA The 3′ untranslated regions (3′UTRs) of eukaryotic genes regulate mRNA stability, localization and translation. Here, we present evidence that large numbers of 3′UTRs in human, mouse and fly are also expressed separately from the associated protein-coding sequences to which they are normally linked, likely by post-transcriptional cleavage. Analysis of CAGE (capped analysis of gene expression), SAGE (serial analysis of gene expression) and cDNA libraries, as well as microarray expression profiles, demonstrate that the independent expression of 3′UTRs is a regulated and conserved genome-wide phenomenon. We characterize the expression of several 3′UTR-derived RNAs (uaRNAs) in detail in mouse embryos, showing by in situ hybridization that these transcripts are expressed in a cell- and subcellular-specific manner. Our results suggest that 3′UTR sequences can function not only in cis to regulate protein expression, but also intrinsically and independently in trans, likely as noncoding RNAs, a conclusion supported by a number of previous genetic studies. Our findings suggest novel functions for 3′UTRs, as well as caution in the use of 3′UTR sequence probes to analyze gene expression. Oxford University Press 2011-03 2010-11-12 /pmc/articles/PMC3064787/ /pubmed/21075793 http://dx.doi.org/10.1093/nar/gkq1158 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle RNA
Mercer, Tim R.
Wilhelm, Dagmar
Dinger, Marcel E.
Soldà, Giulia
Korbie, Darren J.
Glazov, Evgeny A.
Truong, Vy
Schwenke, Maren
Simons, Cas
Matthaei, Klaus I.
Saint, Robert
Koopman, Peter
Mattick, John S.
Expression of distinct RNAs from 3′ untranslated regions
title Expression of distinct RNAs from 3′ untranslated regions
title_full Expression of distinct RNAs from 3′ untranslated regions
title_fullStr Expression of distinct RNAs from 3′ untranslated regions
title_full_unstemmed Expression of distinct RNAs from 3′ untranslated regions
title_short Expression of distinct RNAs from 3′ untranslated regions
title_sort expression of distinct rnas from 3′ untranslated regions
topic RNA
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3064787/
https://www.ncbi.nlm.nih.gov/pubmed/21075793
http://dx.doi.org/10.1093/nar/gkq1158
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